Locus 1720

Sequence ID 3R_DroMel_CAF1
Location 4,942,011 – 4,942,103
Length 92
Max. P 0.915241
window2831

overview

Window 1

Location 4,942,011 – 4,942,103
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 74.10
Mean single sequence MFE -28.98
Consensus MFE -8.42
Energy contribution -7.94
Covariance contribution -0.48
Combinations/Pair 1.23
Mean z-score -2.01
Structure conservation index 0.29
SVM decision value 1.10
SVM RNA-class probability 0.915241
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4942011 92 - 27905053
UUAACCUUCCUCUCUUUUUCUGCGG--GGUGGGGGAGGGGGUUGGGCUUGAGAGGAGCUGGGCGCUCAAAUAUGUGUGCGAACAAAUUUCCGCU
(((((((.(((((((..(((....)--))..)))))))))))))).....((.((((.((..(((.((......)).)))..))...)))).)) ( -30.40)
>DroSec_CAF1 49525 90 - 1
UUAACCUUCCUCUCUUUUUCUCAGUUUUGUUGGGGAAGGGGAAGGGC----GAGGAGUUGGGCGCUCAAAUAUGUGUGCGAACAAAUUUCCGCU
....(((((((((....(((((((.....))))))))))))))))((----(..((.(((..(((.((......)).)))..))).))..))). ( -34.40)
>DroSim_CAF1 49655 72 - 1
UUAACCUUCCUCUCUUUUUC------------------GGGGAGGGA----AUGGAGCUGGGCGCUCAAAUAUGUGUGCGAACAAAUUUCCGCU
....((((((((........------------------)))))))).----..((((.((..(((.((......)).)))..))...))))... ( -23.70)
>DroEre_CAF1 49713 79 - 1
UUAACCUUCCUUUCUU-UUCGGAUG--GGGAA----GGACGC----U----GGGGAGUUGGGCACUCAAAUAUGUGUGCGAACAAAUUUCCGCU
....(((((((((((.-...))).)--)))))----))..((----.----((..(.(((.((((.((....)).))))...))).)..)))). ( -26.80)
>DroYak_CAF1 50475 82 - 1
UUAACCUUCCUCUCUUGUUCGGCGG--GGUGAGG--GGACGC----A----GGAGAGUUGGGCGCUCAAAUAUGUGGGCGAGCAAAUUUCCGCU
......(((((((((((.....)))--)).))))--))..((----.----(((((.(((..((((((......))))))..))).))))))). ( -29.60)
>consensus
UUAACCUUCCUCUCUUUUUCGGAGG__GGUGAGG__GGGGGC_GGGA____GAGGAGUUGGGCGCUCAAAUAUGUGUGCGAACAAAUUUCCGCU
....(((..((((........................................))))..)))(((........))).(((..........))). ( -8.42 =  -7.94 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:40 2006